Your message dated Mon, 01 Feb 2021 22:43:45 +0100
with message-id <558db823ca4a04f9caf628a9b5ca7...@debian.org>
and subject line Re: dolfin: FTBFS: tests failed
has caused the Debian Bug report #980709,
regarding dolfin: FTBFS: tests failed
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
980709: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=980709
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: dolfin
Version: 2019.2.0~git20200629.946dbd3+lfs-4
Severity: serious
Justification: FTBFS on amd64
Tags: bullseye sid ftbfs
Usertags: ftbfs-20210120 ftbfs-bullseye
Hi,
During a rebuild of all packages in sid, your package failed to build
on amd64.
Relevant part (hopefully):
> make[8]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> [ 98%] Building CXX object
> demo/undocumented/waveguide/cpp/CMakeFiles/demo_waveguide.dir/main.cpp.o
> cd "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/demo/undocumented/waveguide/cpp" &&
> /usr/bin/c++ -DDOLFIN_VERSION=\"2019.2.0.dev0\" -DHAS_CHOLMOD -DHAS_HDF5
> -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH -DHAS_UMFPACK -DHAS_ZLIB -DNDEBUG
> -I"/<<PKGBUILDDIR>>" -I"/<<PKGBUILDDIR>>/dolfin"
> -I"/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu" -isystem
> /usr/lib/python3/dist-packages/ffc/backends/ufc -isystem /usr/include/eigen3
> -isystem /usr/include/hdf5/openmpi -isystem
> /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -isystem
> /usr/lib/x86_64-linux-gnu/openmpi/include -isystem
> /usr/lib/petscdir/petsc3.14/x86_64-linux-gnu-real/include -Wno-comment
> -fpermissive -O2 -g -DNDEBUG -std=c++11 -o
> CMakeFiles/demo_waveguide.dir/main.cpp.o -c
> "/<<PKGBUILDDIR>>/demo/undocumented/waveguide/cpp/main.cpp"
> [ 98%] Linking CXX executable demo_spatial-coordinates
> cd
> "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/demo/undocumented/spatial-coordinates/cpp"
> && /usr/bin/cmake -E cmake_link_script
> CMakeFiles/demo_spatial-coordinates.dir/link.txt --verbose=1
> /usr/bin/c++ -Wno-comment -fpermissive -O2 -g -DNDEBUG -Wl,-z,relro
> CMakeFiles/demo_spatial-coordinates.dir/main.cpp.o -o
> demo_spatial-coordinates ../../../../dolfin/libdolfin.so.2019.2.0.dev0
> /usr/lib/x86_64-linux-gnu/libboost_timer.so
> /usr/lib/x86_64-linux-gnu/libboost_chrono.so
> /usr/lib/x86_64-linux-gnu/hdf5/openmpi/libhdf5.so
> /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so
> /usr/lib/x86_64-linux-gnu/libdl.so -lm
> /usr/lib/petscdir/petsc3.14/x86_64-linux-gnu-real/lib/libpetsc_real.so
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so
> make[8]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> [ 98%] Built target demo_spatial-coordinates
> [ 98%] Linking CXX executable demo_waveguide
> cd "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/demo/undocumented/waveguide/cpp" &&
> /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_waveguide.dir/link.txt
> --verbose=1
> /usr/bin/c++ -Wno-comment -fpermissive -O2 -g -DNDEBUG -Wl,-z,relro
> CMakeFiles/demo_waveguide.dir/main.cpp.o -o demo_waveguide
> ../../../../dolfin/libdolfin.so.2019.2.0.dev0
> /usr/lib/x86_64-linux-gnu/libboost_timer.so
> /usr/lib/x86_64-linux-gnu/libboost_chrono.so
> /usr/lib/x86_64-linux-gnu/hdf5/openmpi/libhdf5.so
> /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so
> /usr/lib/x86_64-linux-gnu/libdl.so -lm
> /usr/lib/petscdir/petsc3.14/x86_64-linux-gnu-real/lib/libpetsc_real.so
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so
> make[8]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> [ 98%] Built target demo_waveguide
> [100%] Linking CXX executable demo_sym-dirichlet-bc
> cd
> "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/demo/undocumented/sym-dirichlet-bc/cpp"
> && /usr/bin/cmake -E cmake_link_script
> CMakeFiles/demo_sym-dirichlet-bc.dir/link.txt --verbose=1
> /usr/bin/c++ -Wno-comment -fpermissive -O2 -g -DNDEBUG -Wl,-z,relro
> CMakeFiles/demo_sym-dirichlet-bc.dir/main.cpp.o -o demo_sym-dirichlet-bc
> ../../../../dolfin/libdolfin.so.2019.2.0.dev0
> /usr/lib/x86_64-linux-gnu/libboost_timer.so
> /usr/lib/x86_64-linux-gnu/libboost_chrono.so
> /usr/lib/x86_64-linux-gnu/hdf5/openmpi/libhdf5.so
> /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so
> /usr/lib/x86_64-linux-gnu/libdl.so -lm
> /usr/lib/petscdir/petsc3.14/x86_64-linux-gnu-real/lib/libpetsc_real.so
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so
> make[8]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> [100%] Built target demo_sym-dirichlet-bc
> [100%] Linking CXX executable demo_time-series
> cd "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/demo/undocumented/time-series/cpp"
> && /usr/bin/cmake -E cmake_link_script
> CMakeFiles/demo_time-series.dir/link.txt --verbose=1
> /usr/bin/c++ -Wno-comment -fpermissive -O2 -g -DNDEBUG -Wl,-z,relro
> CMakeFiles/demo_time-series.dir/main.cpp.o -o demo_time-series
> ../../../../dolfin/libdolfin.so.2019.2.0.dev0
> /usr/lib/x86_64-linux-gnu/libboost_timer.so
> /usr/lib/x86_64-linux-gnu/libboost_chrono.so
> /usr/lib/x86_64-linux-gnu/hdf5/openmpi/libhdf5.so
> /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so
> /usr/lib/x86_64-linux-gnu/libdl.so -lm
> /usr/lib/petscdir/petsc3.14/x86_64-linux-gnu-real/lib/libpetsc_real.so
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so
> make[8]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> [100%] Built target demo_time-series
> make[7]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> /usr/bin/cmake -E cmake_progress_start
> "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles" 0
> make[6]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/demo'
> make[5]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> Built target demos
> make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> /usr/bin/cmake -E cmake_progress_start
> "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles" 0
> make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> Run C++ unit tests (serial)
> Test project /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu
> Start 1: unittests
> 1/1 Test #1: unittests ........................ Passed 4.99 sec
>
> 100% tests passed, 0 tests failed out of 1
>
> Total Test time (real) = 5.00 sec
> Run C++ regressions tests (serial)
> Test project /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu
> Start 3: demo_auto-adaptive-poisson_serial
> Start 5: demo_bcs_serial
> Start 7: demo_biharmonic_serial
> Start 9: demo_built-in-meshes_serial
> 1/49 Test #9: demo_built-in-meshes_serial ............... Passed 1.33
> sec
> Start 12: demo_eigenvalue_serial
> 2/49 Test #12: demo_eigenvalue_serial ....................***Failed 0.02
> sec
> *** The MPI_Comm_rank() function was called before MPI_INIT was invoked.
> *** This is disallowed by the MPI standard.
> *** Your MPI job will now abort.
> [ip-172-31-13-75:28976] Local abort before MPI_INIT completed completed
> successfully, but am not able to aggregate error messages, and not able to
> guarantee that all other processes were killed!
>
> Start 14: demo_mixed-poisson_serial
> 3/49 Test #7: demo_biharmonic_serial .................... Passed 2.56
> sec
> Start 16: demo_navier-stokes_serial
> 4/49 Test #5: demo_bcs_serial ........................... Passed 3.63
> sec
> Start 18: demo_neumann-poisson_serial
> 5/49 Test #18: demo_neumann-poisson_serial ............... Passed 2.00
> sec
> Start 20: demo_nonlinear-poisson_serial
> 6/49 Test #16: demo_navier-stokes_serial ................. Passed 3.35
> sec
> Start 22: demo_nonmatching-interpolation_serial
> 7/49 Test #14: demo_mixed-poisson_serial ................. Passed 4.70
> sec
> Start 24: demo_periodic_serial
> 8/49 Test #20: demo_nonlinear-poisson_serial ............. Passed 1.36
> sec
> Start 26: demo_poisson_serial
> 9/49 Test #22: demo_nonmatching-interpolation_serial ..... Passed 1.35
> sec
> Start 28: demo_singular-poisson_serial
> 10/49 Test #24: demo_periodic_serial ...................... Passed 1.32
> sec
> Start 30: demo_stokes-iterative_serial
> 11/49 Test #26: demo_poisson_serial ....................... Passed 1.34
> sec
> Start 32: demo_stokes-taylor-hood_serial
> 12/49 Test #28: demo_singular-poisson_serial .............. Passed 1.55
> sec
> Start 34: demo_subdomains_serial
> 13/49 Test #3: demo_auto-adaptive-poisson_serial ......... Passed 9.13
> sec
> Start 36: demo_advection-diffusion_serial
> 14/49 Test #34: demo_subdomains_serial .................... Passed 1.44
> sec
> Start 38: demo_ale_serial
> 15/49 Test #36: demo_advection-diffusion_serial ........... Passed 2.37
> sec
> Start 40: demo_auto-adaptive-navier-stokes_serial
> 16/49 Test #38: demo_ale_serial ........................... Passed 1.41
> sec
> Start 42: demo_block-matrix_serial
> 17/49 Test #42: demo_block-matrix_serial .................. Passed 1.35
> sec
> Start 44: demo_conditional_serial
> 18/49 Test #44: demo_conditional_serial ................... Passed 7.74
> sec
> Start 46: demo_contact-vi-snes_serial
> 19/49 Test #46: demo_contact-vi-snes_serial ............... Passed 1.81
> sec
> Start 48: demo_contact-vi-tao_serial
> 20/49 Test #48: demo_contact-vi-tao_serial ................ Passed 1.58
> sec
> Start 50: demo_curl-curl_serial
> 21/49 Test #50: demo_curl-curl_serial ..................... Passed 5.83
> sec
> Start 52: demo_dg-advection-diffusion_serial
> 22/49 Test #30: demo_stokes-iterative_serial .............. Passed 30.75
> sec
> Start 54: demo_dg-poisson_serial
> 23/49 Test #32: demo_stokes-taylor-hood_serial ............ Passed 30.61
> sec
> Start 56: demo_elasticity_serial
> 24/49 Test #54: demo_dg-poisson_serial .................... Passed 1.89
> sec
> Start 57: demo_elastodynamics_serial
> 25/49 Test #56: demo_elasticity_serial .................... Passed 6.50
> sec
> Start 59: demo_eval_serial
> 26/49 Test #59: demo_eval_serial .......................... Passed 6.82
> sec
> Start 61: demo_extrapolation_serial
> 27/49 Test #61: demo_extrapolation_serial ................. Passed 1.40
> sec
> Start 63: demo_functional_serial
> 28/49 Test #63: demo_functional_serial .................... Passed 1.38
> sec
> Start 65: demo_gmg-poisson_serial
> 29/49 Test #65: demo_gmg-poisson_serial ................... Passed 1.46
> sec
> Start 67: demo_lift-drag_serial
> 30/49 Test #67: demo_lift-drag_serial ..................... Passed 1.41
> sec
> Start 69: demo_mesh-quality_serial
> 31/49 Test #69: demo_mesh-quality_serial .................. Passed 1.40
> sec
> Start 71: demo_meshfunction-refinement_serial
> 32/49 Test #71: demo_meshfunction-refinement_serial ....... Passed 1.39
> sec
> Start 73: demo_multimesh-poisson_serial
> 33/49 Test #73: demo_multimesh-poisson_serial ............. Passed 2.93
> sec
> Start 75: demo_multimesh-stokes_serial
> 34/49 Test #75: demo_multimesh-stokes_serial .............. Passed 3.36
> sec
> Start 77: demo_nonmatching-projection_serial
> 35/49 Test #77: demo_nonmatching-projection_serial ........ Passed 1.99
> sec
> Start 79: demo_parallel-refinement_serial
> 36/49 Test #79: demo_parallel-refinement_serial ........... Passed 1.41
> sec
> Start 81: demo_parameters_serial
> 37/49 Test #81: demo_parameters_serial .................... Passed 1.39
> sec
> Start 83: demo_poisson1D_serial
> 38/49 Test #52: demo_dg-advection-diffusion_serial ........ Passed 42.69
> sec
> Start 85: demo_poisson1D-in-2D_serial
> 39/49 Test #83: demo_poisson1D_serial ..................... Passed 1.38
> sec
> Start 87: demo_poisson-disc_serial
> 40/49 Test #85: demo_poisson1D-in-2D_serial ............... Passed 1.35
> sec
> Start 89: demo_refinement_serial
> 41/49 Test #89: demo_refinement_serial .................... Passed 1.41
> sec
> Start 91: demo_spatial-coordinates_serial
> 42/49 Test #91: demo_spatial-coordinates_serial ........... Passed 1.44
> sec
> Start 93: demo_submesh_serial
> 43/49 Test #93: demo_submesh_serial ....................... Passed 1.42
> sec
> Start 95: demo_sym-dirichlet-bc_serial
> 44/49 Test #40: demo_auto-adaptive-navier-stokes_serial ... Passed 67.46
> sec
> Start 97: demo_time-series_serial
> 45/49 Test #97: demo_time-series_serial ................... Passed 1.41
> sec
> Start 99: demo_waveguide_serial
> 46/49 Test #99: demo_waveguide_serial .....................***Failed 0.02
> sec
> *** The MPI_Comm_rank() function was called before MPI_INIT was invoked.
> *** This is disallowed by the MPI standard.
> *** Your MPI job will now abort.
> [ip-172-31-13-75:29364] Local abort before MPI_INIT completed completed
> successfully, but am not able to aggregate error messages, and not able to
> guarantee that all other processes were killed!
>
> 47/49 Test #87: demo_poisson-disc_serial .................. Passed 7.31
> sec
> 48/49 Test #57: demo_elastodynamics_serial ................ Passed 114.98
> sec
> 49/49 Test #95: demo_sym-dirichlet-bc_serial .............. Passed 180.77
> sec
>
> 96% tests passed, 2 tests failed out of 49
>
> Total Test time (real) = 259.06 sec
>
> The following tests FAILED:
> 12 - demo_eigenvalue_serial (Failed)
> 99 - demo_waveguide_serial (Failed)
> Errors while running CTest
> make[1]: *** [debian/rules:248: override_dh_auto_test-arch] Error 8
The full build log is available from:
http://qa-logs.debian.net/2021/01/20/dolfin_2019.2.0~git20200629.946dbd3+lfs-4_unstable.log
A list of current common problems and possible solutions is available at
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!
If you reassign this bug to another package, please marking it as 'affects'-ing
this package. See https://www.debian.org/Bugs/server-control#affects
If you fail to reproduce this, please provide a build log and diff it with me
so that we can identify if something relevant changed in the meantime.
About the archive rebuild: The rebuild was done on EC2 VM instances from
Amazon Web Services, using a clean, minimal and up-to-date chroot. Every
failed build was retried once to eliminate random failures.
--- End Message ---
--- Begin Message ---
Still passing tests reliably on debci, so closing this bug now.
--- End Message ---
